YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213618584
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E98-2068
Length:	328 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|213618584.

Description	E-value	Query Range	Subject Range
gi\|218560071, gi... - gi\|218560071\|ref\|YP_002392984.1\| hydrogenase 2 protein HybA [Escherichia coli S88], gi\|218366840\|emb... gi\|26249564, gi\|... - gi\|26249564\|ref\|NP_755604.1\| hydrogenase 2 protein HybA [Escherichia coli CFT073], gi\|26109972\|gb\|AA... gi\|218433720, gi... - gi\|218706623\|ref\|YP_002414142.1\| hydrogenase 2 protein HybA [Escherichia coli UMN026], gi\|218433720\|... gi\|91212410, gi\|... - gi\|91212410\|ref\|YP_542396.1\| hydrogenase 2 protein HybA [Escherichia coli UTI89], gi\|91073984\|gb\|ABE... gi\|115514425, gi... - gi\|117625301\|ref\|YP_854502.1\| hydrogenase 2 protein HybA [Escherichia coli APEC O1], gi\|115514425\|gb... gi\|215266394, gi... - gi\|215488322\|ref\|YP_002330753.1\| hydrogenase 2 protein HybA [Escherichia coli O127:H6 str. E2348/69]... gi\|191172476, gi... - gi\|75240548\|ref\|ZP_00724476.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|218550247, gi... - gi\|218550247\|ref\|YP_002384038.1\| hydrogenase 2 protein HybA [Escherichia fergusonii ATCC 35469], gi\|...	1.0E-74	[1..328]	[1..328]
gi\|194426277, gi... - gi\|75212358\|ref\|ZP_00712382.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|209398622, gi... - gi\|209398622\|ref\|YP_002272475.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 s... gi\|157081075, gi... - gi\|75187819\|ref\|ZP_00701086.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|208821438, gi... - gi\|208821438\|ref\|ZP_03261758.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 st... gi\|83587557, gi\|... - gi\|83587557\|ref\|ZP_00926184.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|217319326, gi... - gi\|217326959\|ref\|ZP_03443042.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 st... gi\|209920472, gi... - gi\|209920472\|ref\|YP_002294556.1\| hydrogenase 2 protein HybA [Escherichia coli SE11], gi\|209913731\|db... gi\|188496245, gi... - gi\|75515206\|ref\|ZP_00737390.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|218353438, gi... - gi\|218696706\|ref\|YP_002404373.1\| hydrogenase 2 protein HybA [Escherichia coli 55989], gi\|218353438\|e... gi\|75259942, gi\|... - gi\|75259942\|ref\|ZP_00731220.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|218555570, gi... - gi\|218555570\|ref\|YP_002388483.1\| hydrogenase 2 protein HybA [Escherichia coli IAI1], gi\|218362338\|em... gi\|192959430, gi... - gi\|75239420\|ref\|ZP_00723391.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|191167535, gi... - gi\|75229317\|ref\|ZP_00715876.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi... gi\|218701770, gi... - gi\|218701770\|ref\|YP_002409399.1\| hydrogenase 2 protein HybA [Escherichia coli IAI39], gi\|218371756\|e... EG11799 - hydrogenase 2 4Fe-4S ferredoxin-type component / Hydrogenase 2 component, periplasmic; possibly elec... gi\|168797583, gi... - gi\|189379701\|gb\|EDU98117.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|168785865, gi... - gi\|189374019\|gb\|EDU92435.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|170679790, gi... - gi\|170679790\|ref\|YP_001745262.1\| hydrogenase-2 electron transfer subunit [Escherichia coli SMS-3-5],... gi\|170082544, gi... - gi\|170082544\|ref\|YP_001731864.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli st... gi\|195937142 - gi\|195937142\|ref\|ZP_03082524.1\| hydrogenase 2 protein HybA [Escherichia coli O157:H7 str. EC4024] gi\|170765746, gi... - gi\|170765746\|ref\|ZP_02900557.1\| hydrogenase-2 electron transfer subunit [Escherichia albertii TW0762... gi\|208734687, gi... - gi\|208813410\|ref\|ZP_03254739.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 st... gi\|208805976, gi... - gi\|208805976\|ref\|ZP_03248313.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 st... gi\|110806899, gi... - gi\|110806899\|ref\|YP_690419.1\| hydrogenase 2 protein HybA [Shigella flexneri 5 str. 8401], gi\|1106164... gi\|13363353, gi\|... - gi\|15833135\|ref\|NP_311908.1\| hydrogenase 2 protein HybA [Escherichia coli O157:H7 str. Sakai], gi\|13... gi\|110643236, gi... - gi\|110643236\|ref\|YP_670966.1\| hydrogenase 2 protein HybA [Escherichia coli 536], gi\|110344828\|gb\|ABG... gi\|30064351, gi\|... - gi\|30064351\|ref\|NP_838522.1\| hydrogenase 2 protein HybA [Shigella flexneri 2a str. 2457T], gi\|300426... HYBA_ECO57 - Hydrogenase-2 operon protein HybA OS=Escherichia coli O157:H7 GN=hybA PE=3 SV=1 HYBA_SHIFL - Hydrogenase-2 operon protein HybA OS=Shigella flexneri GN=hybA PE=3 SV=1 gi\|189358464, gi... - gi\|189358464\|gb\|EDU76883.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|238902114, gi... - gi\|238902114\|ref\|YP_002927910.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli BW... gi\|24053461, gi\|... - gi\|24114304\|ref\|NP_708814.1\| hydrogenase 2 protein HybA [Shigella flexneri 2a str. 301], gi\|24053461... gi\|188017775, gi... - gi\|188017775\|gb\|EDU55897.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|242378552, gi... - gi\|251786279\|ref\|YP_003000583.1\| hypothetical protein B21_02821 [Escherichia coli BL21], gi\|24237855... HYBA_ECOLI - Hydrogenase-2 operon protein hybA precursor - Escherichia coli gi\|189363781, gi... - gi\|189363781\|gb\|EDU82200.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|254289699, gi... - gi\|254289699\|ref\|YP_003055447.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli BL... gi\|189369254, gi... - gi\|189369254\|gb\|EDU87670.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|254038165, gi... - gi\|254038165\|ref\|ZP_04872223.1\| hydrogenase-2 electron transfer subunit [Escherichia sp. 1_1_43], gi... EG11799 - hydrogenase 2 4Fe-4S ferredoxin-type component / Hydrogenase 2 component, periplasmic; possibly elec... gi\|168781867, gi... - gi\|189000639\|gb\|EDU69625.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|253974851, gi... - gi\|254162950\|ref\|YP_003046058.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli B ... gi\|187770783, gi... - gi\|187770783\|gb\|EDU34627.1\| hydrogenase-2 electron transfer subunit [Escherichia coli O157:H7 str. E... gi\|254794953, gi... - gi\|254794953\|ref\|YP_003079790.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli O1... gi\|85675804, gi\|... - gi\|89109771\|ref\|AP_003551.1\| hydrogenase 2 4Fe-4S ferredoxin-type component [Escherichia coli str. K... gi\|81246677, gi\|... - gi\|82545266\|ref\|YP_409213.1\| hydrogenase 2 protein HybA [Shigella boydii Sb227], gi\|81246677\|gb\|ABB6... gi\|73857018, gi\|... - gi\|74313541\|ref\|YP_311960.1\| hydrogenase 2 protein HybA [Shigella sonnei Ss046], gi\|73857018\|gb\|AAZ8...	3.0E-74	[1..328]	[1..328]
gi\|12517560, gi\|... - gi\|15803541\|ref\|NP_289574.1\| hydrogenase 2 protein HybA [Escherichia coli O157:H7 EDL933], gi\|125175... gi\|25387625 - gi\|25387625\|pir\|\|A85959 hydrogenase-2 small subunit [imported] - Escherichia coli (strain O157:H7, ...	4.0E-74	[1..328]	[1..328]
gi\|75196960, gi\|... - gi\|75196960\|ref\|ZP_00707030.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Escherichi...	5.0E-74	[1..328]	[1..328]
gi\|187429479, gi... - gi\|75178895\|ref\|ZP_00698931.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Shigella b...	1.0E-73	[1..328]	[1..328]
gi\|81242383, gi\|... - gi\|82778235\|ref\|YP_404584.1\| hydrogenase 2 protein HybA [Shigella dysenteriae Sd197], gi\|81242383\|gb...	1.0E-73	[1..328]	[1..328]
gi\|238790269, gi... - gi\|77974203\|ref\|ZP_00829745.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Yersinia f...	3.0E-66	[1..326]	[1..325]
gi\|77958086 - gi\|77958086\|ref\|ZP_00822126.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Yersinia b...	6.0E-65	[1..327]	[1..330]
gi\|77978277, gi\|... - gi\|77978277\|ref\|ZP_00833708.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Yersinia i...	1.0E-64	[1..326]	[1..331]
gi\|32034180 - gi\|32034180\|ref\|ZP_00134402.1\| COG0437: Fe-S-cluster-containing hydrogenase components 1 [Actinobaci... gi\|165976757, gi... - gi\|165976757\|ref\|YP_001652350.1\| hydrogenase 2 protein HybA [Actinobacillus pleuropneumoniae serovar... gi\|126097588, gi... - gi\|126208796\|ref\|YP_001054021.1\| hydrogenase 2 protein HybA [Actinobacillus pleuropneumoniae L20], g...	3.0E-64	[1..318]	[1..318]

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Predicted Domain #1

Region A:
Residues: [1-328]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNRRDFIKAA SGGALLLGAA PSVSHAAAEN RPPIPGSLGM LYDSTLCVGC QACVTKCQDI  60
   61 NFPARNPEGE QTWSNNDKLS PYTNNIIQVW RSGTGVNKDQ EENGYAYIKK QCMHCVDPNC 120
  121 VSVCPVSALK KDPKTGIVHY DKDVCTGCRY CMVACPYNVP KYDYNNPFGA LHKCELCNQK 180
  181 GVERLDKGGL PGCVEVCPAG AVIFGTREEL MAEAKKRLAL KPGSEYHYPR QTLKTDDTYL 240
  241 HTVPKYYPHL YGEKEGGGTQ VLVLTGVPYE DLDLPKLDDL STGARSEHVQ HTLYKGMILP 300
  301 LAALAGLTVL VRRNSKNDHH DGGDDHES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.69897
Match:	1kqfB
Description:	Formate dehydrogenase N, iron-sulfur (beta) subunit; Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
formate dehydrogenase activity	10.9674358961972	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	7.27554333181693	bayes_pls_golite062009
iron-sulfur cluster binding	6.49651154487804	bayes_pls_golite062009
metal cluster binding	6.49651154487804	bayes_pls_golite062009
oxidoreductase activity	5.98361135786786	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	5.77927347135001	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	5.39747453448396	bayes_pls_golite062009
electron carrier activity	5.05393703018095	bayes_pls_golite062009
NADH dehydrogenase activity	3.13953145151561	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	2.76338281383262	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	2.70037803782769	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	2.09041948600744	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	1.80621486978907	bayes_pls_golite062009
catalytic activity	0.488483980994331	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: